Ptprm protein tyrosine phosphatase, receptor type, M [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ptprmprovided by RGD
Official Full Name: protein tyrosine phosphatase, receptor type, Mprovided by RGD
Primary source: RGD:620776
See related: EnsemblRapid:ENSRNOG00000011700 AllianceGenome:RGD:620776
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable cadherin binding activity; identical protein binding activity; and transmembrane receptor protein tyrosine phosphatase activity. Predicted to be involved in several processes, including homophilic cell adhesion via plasma membrane adhesion molecules; retina layer formation; and retinal ganglion cell axon guidance. Predicted to act upstream of or within vasodilation. Predicted to be located in several cellular components, including adherens junction; lamellipodium; and perinuclear region of cytoplasm. Predicted to be active in cell-cell junction. Orthologous to human PTPRM (protein tyrosine phosphatase receptor type M). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Lung (RPKM 344.0), Heart (RPKM 206.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 9q37

Exon count:: 38

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (114086380..114791000, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (106639573..107343698, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (114846095..115555261, complement)

Chromosome 9 - NC_086027.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH143821 (e-PCR)
- UniSTS:233067

BG371570 (e-PCR)
- UniSTS:248744

Ptprm (e-PCR), detects polymorphism
- UniSTS:545977

d9rat71 (e-PCR)
- UniSTS:122553

D9Rat166 (e-PCR), detects polymorphism
- UniSTS:228344

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables cadherin binding	ISO Inferred from Sequence Orthology more info
enables cadherin binding	ISS Inferred from Sequence or Structural Similarity more info
enables histone H2AXY142 phosphatase activity	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables non-membrane spanning protein tyrosine phosphatase activity	IEA Inferred from Electronic Annotation more info
enables phosphatase activity	ISO Inferred from Sequence Orthology more info
enables protein tyrosine phosphatase activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein tyrosine phosphatase activity	ISO Inferred from Sequence Orthology more info
enables protein tyrosine phosphatase activity, metal-dependent	IEA Inferred from Electronic Annotation more info
enables transmembrane receptor protein tyrosine phosphatase activity	ISO Inferred from Sequence Orthology more info
enables transmembrane receptor protein tyrosine phosphatase activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in homophilic cell adhesion via plasma membrane adhesion molecules	ISO Inferred from Sequence Orthology more info
involved_in homophilic cell adhesion via plasma membrane adhesion molecules	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of angiogenesis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of angiogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of endothelial cell migration	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of endothelial cell migration	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of endothelial cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of endothelial cell proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in neuron projection development	IBA Inferred from Biological aspect of Ancestor more info
involved_in neuron projection development	ISO Inferred from Sequence Orthology more info
involved_in neuron projection development	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein dephosphorylation	ISO Inferred from Sequence Orthology more info
involved_in protein dephosphorylation	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to xenobiotic stimulus	ISO Inferred from Sequence Orthology more info
involved_in response to xenobiotic stimulus	ISS Inferred from Sequence or Structural Similarity more info
involved_in retina layer formation	ISO Inferred from Sequence Orthology more info
involved_in retina layer formation	ISS Inferred from Sequence or Structural Similarity more info
involved_in retinal ganglion cell axon guidance	ISO Inferred from Sequence Orthology more info
involved_in retinal ganglion cell axon guidance	ISS Inferred from Sequence or Structural Similarity more info
involved_in signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in signal transduction	ISO Inferred from Sequence Orthology more info
involved_in signal transduction	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within vasodilation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in adherens junction	ISO Inferred from Sequence Orthology more info
located_in adherens junction	ISS Inferred from Sequence or Structural Similarity more info
is_active_in cell-cell junction	ISO Inferred from Sequence Orthology more info
located_in cell-cell junction	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in lamellipodium	ISO Inferred from Sequence Orthology more info
located_in lamellipodium	ISS Inferred from Sequence or Structural Similarity more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: receptor-type tyrosine-protein phosphatase mu

NP_001162103.1

EC 3.1.3.48

XP_038939047.2

EC 3.1.3.48

XP_038939053.2

EC 3.1.3.48

XP_063122888.1

EC 3.1.3.48

XP_063122890.1

EC 3.1.3.48

XP_063122891.1

EC 3.1.3.48

XP_063122892.1

EC 3.1.3.48

XP_063122893.1

EC 3.1.3.48

XP_063122894.1

EC 3.1.3.48

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001168632.2 → NP_001162103.1 receptor-type tyrosine-protein phosphatase mu isoform 1 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000009

UniProtKB/TrEMBL

A0A0G2K8V0, F1LPJ1

Related

ENSRNOP00000053204.3, ENSRNOT00000056366.6

Conserved Domains (8) summary

cd06263
Location:27 → 182

MAM; Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members ...

smart00060
Location:282 → 361

FN3; Fibronectin type 3 domain

smart00137
Location:22 → 182

MAM; Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others)

smart00194
Location:933 → 1187

PTPc; Protein tyrosine phosphatase, catalytic domain

smart00410
Location:192 → 278

IG_like; Immunoglobulin like

cd00047
Location:960 → 1187

PTPc; Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr ...

cd00063
Location:499 → 581

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam00047
Location:192 → 274

ig; Immunoglobulin domain
NM_001431773.1 → NP_001418702.1 receptor-type tyrosine-protein phosphatase mu isoform 2 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000009

UniProtKB/TrEMBL

A0A8I5ZPJ0
NM_001431774.1 → NP_001418703.1 receptor-type tyrosine-protein phosphatase mu isoform 3 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000009

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086027.1 Reference GRCr8

Range

114086380..114791000 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063266820.1 → XP_063122890.1 receptor-type tyrosine-protein phosphatase mu isoform X2
XM_063266818.1 → XP_063122888.1 receptor-type tyrosine-protein phosphatase mu isoform X1

Related

ENSRNOP00000080359.1, ENSRNOT00000107262.2
XM_039083125.2 → XP_038939053.2 receptor-type tyrosine-protein phosphatase mu isoform X4
XM_039083119.2 → XP_038939047.2 receptor-type tyrosine-protein phosphatase mu isoform X3
XM_063266821.1 → XP_063122891.1 receptor-type tyrosine-protein phosphatase mu isoform X5
XM_063266822.1 → XP_063122892.1 receptor-type tyrosine-protein phosphatase mu isoform X6
XM_063266823.1 → XP_063122893.1 receptor-type tyrosine-protein phosphatase mu isoform X7
XM_063266824.1 → XP_063122894.1 receptor-type tyrosine-protein phosphatase mu isoform X8